# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1oh0A 131 1.99e-15 d.17.4.3 87004 1ohpA 125 2.91e-15 d.17.4.3 118702 1ocvA 125 3.50e-15 d.17.4.3 86810 1dmmA 131 8.64e-15 1opy d.17.4.3 38114 1opy 131 1.02e-14 1opy 2bngA 149 1.45e-14 2a15A 139 9.80e-14 d.17.4.3 125973 1tuhA 156 1.13e-13 d.17.4.11 107345 1nwwA 149 1.82e-13 d.17.4.8 86306 1s5aA 150 1.20e-12 d.17.4.10 98525 2geyA 158 4.85e-12 2imjA 166 5.40e-11 1sjwA 144 6.17e-10 d.17.4.9 98899 3cu3A 172 2.46e-09 1m98A 317 5.22e-09 a.175.1.1,d.17.4.6 78866,78867 2ux0A 143 6.72e-09 2gxfA 142 1.05e-08 3cnxA 170 1.17e-08 1hkxA 147 5.51e-08 d.17.4.7 83567 2chcA 170 1.95e-07 3b7cA 122 2.61e-07 2rgqA 144 1.64e-06 2rfrA 155 1.77e-06 2owpA 129 2.21e-06 1tp6A 128 4.78e-06 d.17.4.12 107184 2f86B 143 2.57e-05 3blzA 128 3.77e-05 1zo2A 129 7.35e-05 1uliB 187 9.91e-05 d.17.4.4 107923 3bb9A 148 1.29e-04 2r4iA 123 1.70e-04 2gbwB 174 1.47e-03 2ckfB 174 2.90e-03 1idpA 172 2.96e-03 d.17.4.1 83685 1zx2A 147 4.31e-03 2bmoB 194 1.13e-02 d.17.4.4 128806 1gy6A 127 1.85e-02 d.17.4.2 70736 2qiyA 154 2.39e-02 1ounA 127 2.59e-02 1ounA d.17.4.2 38090 1jkgA 140 2.93e-02 d.17.4.2 66795 1std 172 3.43e-02 3stdA 3stdA 165 5.31e-02 3stdA d.17.4.1 38073 1of5B 184 9.16e-02 d.17.4.2 86934 2b1xB 172 9.66e-02 d.17.4.4 127677 1gy7A 125 9.90e-02 d.17.4.2 70738 1yq2A 1024 1.04e-01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 123843,123844,123845,123846,123847 1vqqA 646 1.52e-01 d.17.4.5,d.175.1.1,e.3.1.1 114009,114010,114011 1gybA 125 1.61e-01 d.17.4.2 70744 2bkyA 97 2.16e-01 d.68.6.1 128715 1q42A 201 2.37e-01 d.17.4.2 95776 1h0xA 100 2.99e-01 d.68.6.1 76451 3cswA 285 3.03e-01 2q0lA 311 3.30e-01 1hv9A 456 4.33e-01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1jh6A 189 4.70e-01 d.61.1.1 66707 1ucdA 190 5.58e-01 d.124.1.1 107767 1wvhA 134 5.76e-01 b.55.1.2 121341 1rztA 331 6.08e-01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2inpC 328 6.24e-01 2elfA 370 6.61e-01 2axoA 270 7.62e-01 c.47.1.19 127496 1m1hA 248 7.85e-01 b.114.1.1,d.58.42.1 78415,78416 2gv8A 447 8.08e-01 c.3.1.5,c.3.1.5 135759,135760 1si6X 282 8.12e-01 d.151.1.2 118968 1htwA 158 8.30e-01 c.37.1.18 71083 2nlvA 112 8.40e-01 d.326.1.1 138362 2yx0A 342 8.75e-01 1vqwA 457 9.56e-01 c.3.1.5,c.3.1.5 114028,114029 2pqxA 245 9.86e-01 1q7lA 198 1.00e+00 c.56.5.4 96044 2obiA 183 1.03e+00 1yycA 174 1.05e+00 2d4gA 171 1.12e+00 1ka1A 357 1.13e+00 e.7.1.1 68369 2cc3A 150 1.22e+00 1qgxA 357 1.35e+00 1qgxA e.7.1.1 42973 2qh5A 308 1.36e+00 2e57A 637 1.38e+00 1zthA 258 1.43e+00 1oacA 727 1.48e+00 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1z5rA 306 1.53e+00 c.56.5.1 124488 1p35A 299 1.54e+00 1p35A b.28.1.1 23925 1fsiA 189 1.55e+00 1fsiA d.61.1.1 39536 1i58A 189 1.57e+00 1b3qA d.122.1.3 61773 2yweA 600 1.61e+00 2jaeA 489 1.68e+00 1o0wA 252 1.71e+00 a.149.1.1,d.50.1.1 80751,80752 1nstA 325 1.75e+00 1nstA c.37.1.5 31951 2imqX 282 1.79e+00 2e7vA 121 1.89e+00 2gqwA 408 1.95e+00 1qp8A 303 1.98e+00 1qp8A c.2.1.4,c.23.12.1 30092,31352 1dcqA 278 2.01e+00 1dcqA d.211.1.1,g.45.1.1 19178,45326 1dp0A 1023 2.02e+00 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1u14A 172 2.03e+00 c.51.4.3 107579 2novA 496 2.06e+00 2cb4A 291 2.10e+00 2yw2A 424 2.16e+00 2ahdA 165 2.24e+00 d.159.1.7 126752 2abqA 306 2.24e+00 c.72.1.1 126528 1zxmA 400 2.33e+00 1d8cA 723 2.39e+00 1d8cA c.1.13.1 29325 2bo9A 308 2.42e+00 c.56.5.1 128897 1fxjA 331 2.43e+00 1fwyA b.81.1.4,c.68.1.5 28062,34520 2yx1A 336 2.60e+00 3b89A 252 2.71e+00 1jz8A 1023 2.73e+00 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 2qecA 204 2.73e+00 1x2gA 337 2.81e+00 1vh5A 148 2.86e+00 d.38.1.5 100642 2al6A 375 2.92e+00 a.11.2.1,b.55.1.5,d.15.1.4 126966,126967,126968 1bavA 309 2.95e+00 1aye c.56.5.1 33806 2ipqX 135 2.95e+00 1gsoA 431 3.06e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1jqgA 433 3.12e+00 c.56.5.1,d.58.3.1 71791,71792 2zbwA 335 3.18e+00 1m4lA 307 3.22e+00 c.56.5.1 78604 2gdjA 264 3.24e+00 c.37.1.11 135018 1p7gA 222 3.37e+00 a.2.11.1,d.44.1.1 94223,94224 3bczA 293 3.42e+00 1b04A 318 3.43e+00 1b04A d.142.2.2 41579 2hp7A 183 3.45e+00 1l1jA 239 3.60e+00 b.47.1.1 84516 1tuzA 118 3.77e+00 a.39.1.7 112670 1l1zA 274 3.79e+00 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1p7tA 731 3.80e+00 c.1.13.1 94319 2v6oA 596 3.99e+00 2ctc 307 4.05e+00 1aye 2j6vA 301 4.09e+00 1h70A 255 4.18e+00 1h70A d.126.1.3 60711 1d7yA 408 4.25e+00 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1dixA 208 4.34e+00 1bk7A d.124.1.1 41122 2axqA 467 4.44e+00 1jnyA 435 4.44e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1a0iA 348 4.52e+00 b.40.4.6,d.142.2.1 25363,41577 1xccA 220 4.61e+00 c.47.1.10 115113 1h7eA 245 4.68e+00 c.68.1.13 60717 1gesA 450 4.74e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2gojA 197 4.82e+00 1kjqA 391 4.93e+00 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1rsgA 516 4.98e+00 1g60A 260 5.05e+00 c.66.1.11 70151 1t71A 281 5.07e+00 d.159.1.9 112283 1r2zA 274 5.08e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2sak 121 5.12e+00 2sak 2sakA 121 5.12e+00 d.15.5.1 37711 2dm9A 198 5.33e+00 1roaA 122 5.38e+00 d.17.1.2 105024 2p8tA 200 5.38e+00 1mngA 203 5.47e+00 1avmA a.2.11.1,d.44.1.1 15776,38701 1fl2A 310 5.50e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1eg9B 194 5.58e+00 1ndoB d.17.4.4 38120 1xksA 450 5.64e+00 b.69.14.1 115422 1omzA 293 5.70e+00 c.68.1.15 87093 1kwmA 402 5.73e+00 c.56.5.1,d.58.3.1 73079,73080 1o0iA 138 5.80e+00 d.38.1.5 86532 1wguA 136 5.91e+00 b.55.1.2 114623 3cygA 222 6.13e+00 2oiwA 136 6.15e+00 2f7vA 369 6.23e+00 2eb0A 307 6.46e+00 1p97A 114 6.56e+00 d.110.3.7 94382 1de4C 640 6.85e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 2z26A 347 6.88e+00 2fxtA 192 6.89e+00 1t82A 155 6.91e+00 d.38.1.5 106639 2r85A 334 6.99e+00 1tig 94 7.08e+00 1tig 1tigA 94 7.08e+00 d.68.1.1 39566 1o7nB 194 7.17e+00 d.17.4.4 81164 1e3dB 542 7.17e+00 1h2rL e.18.1.1 59189 1fecA 490 7.17e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 2dcnA 311 7.25e+00 c.72.1.1 131374 2hgsA 474 7.26e+00 2hgsA c.30.1.4,d.142.1.6 31722,75997 1iybA 208 7.28e+00 d.124.1.1 90720 1o97D 320 7.45e+00 c.26.2.3,c.31.1.2 81233,81234 2cw9A 194 7.60e+00 d.17.4.13 130920 1nexB 464 7.69e+00 a.158.1.1,b.69.4.1 80443,80444 3bgaA 1010 7.73e+00 2v94A 107 7.86e+00 1ixmA 192 7.87e+00 1ixmA d.123.1.1 41114 1h7wA 1025 7.98e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1f89A 291 8.00e+00 d.160.1.1 64988 1qqrA 138 8.20e+00 1bmlC d.15.5.1 37721 2f51A 118 8.26e+00 1usyA 275 8.27e+00 d.104.1.1 113422 1nfjA 89 8.38e+00 d.68.6.1 91866 2oryA 346 8.48e+00 1iq6A 134 8.50e+00 d.38.1.4 76755 1vd3A 217 8.53e+00 1o5uA 101 8.70e+00 b.82.1.8 92518 1e6cA 173 8.73e+00 1shkA c.37.1.2 59296 2c2aA 258 8.94e+00 a.30.2.1,d.122.1.3 129662,129663 1l4dB 122 9.16e+00 d.15.5.1 77684 2d0oA 610 9.22e+00 c.8.6.1,c.55.1.6,c.55.1.6 131075,131076,131077 2z4uA 261 9.37e+00 2nwvA 114 9.55e+00 d.326.1.1 138720 2hhiA 204 9.78e+00 1bxeA 113 9.88e+00 1bxeA d.55.1.1 38898 1iscA 192 9.94e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 2a13A 166 1.01e+01 b.60.1.8 125971 1h2iA 209 1.02e+01 d.50.1.3 76550 1zwyA 185 1.03e+01 c.51.4.3 125753 2awpA 198 1.04e+01 1xeeA 91 1.08e+01 1xxqA 161 1.08e+01 2eq6A 464 1.09e+01 1oj5A 132 1.10e+01 d.110.3.8 93087 1sa3A 262 1.10e+01 c.52.1.23 105400 1qq9A 284 1.12e+01 1xjo c.56.5.4 33841 1iioA 84 1.15e+01 a.39.4.1 66150 2g9zA 348 1.16e+01 2c1cA 312 1.16e+01 c.56.5.1 129630 2cduA 452 1.18e+01 1ei1A 391 1.20e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1eg2A 319 1.21e+01 1eg2A c.66.1.11 34249 1wm5A 208 1.22e+01 a.118.8.1 121028 1q60A 99 1.23e+01 d.288.1.1 111654 2eg6A 347 1.26e+01 1r85A 379 1.26e+01 c.1.8.3 104839 2b02A 119 1.26e+01 2aehA 369 1.27e+01 a.11.2.1,b.55.1.5,d.15.1.4 126625,126626,126627 1xjuA 163 1.28e+01 d.2.1.3 115394 1gteA 1025 1.28e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1k1xA 659 1.28e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1w9yA 319 1.28e+01 b.82.2.1 120801 1gvjA 146 1.29e+01 a.4.5.21 90525 1cbfA 285 1.29e+01 c.90.1.1 35587 1mwpA 96 1.29e+01 1mwpA d.170.2.1 42453 1dtdA 303 1.29e+01 1aye c.56.5.1 33823 2qazA 128 1.30e+01 2hjeA 221 1.30e+01 1qwjA 229 1.31e+01 c.68.1.13 96478 2bkyX 89 1.32e+01 d.68.6.1 128717 2a2aA 321 1.33e+01 2yutA 207 1.37e+01 2dxqA 150 1.37e+01 2p3eA 420 1.37e+01 2cxiA 348 1.38e+01 1g38A 393 1.38e+01 2admA c.66.1.27,d.287.1.1 111567,111568 1h6qA 168 1.39e+01 1h6qA b.88.1.2 60692 2qm4A 235 1.40e+01 1f7uA 607 1.41e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2v5jA 287 1.41e+01 2ia7A 134 1.43e+01 1zk7A 467 1.43e+01 1g0cA 364 1.43e+01 7a3hA c.1.8.3 60165 1ta8A 332 1.45e+01 d.142.2.2 112375 1uzxA 169 1.45e+01 d.20.1.2 100238 2q02A 272 1.45e+01 1b5qA 472 1.45e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1w36D 608 1.46e+01 c.37.1.19,c.37.1.19 114128,114129 2qv3A 457 1.46e+01 1zmdA 474 1.47e+01 1svdM 110 1.47e+01 d.73.1.1 119059 1div 149 1.48e+01 1div 1sglA 209 1.49e+01 d.124.1.1 105536 2eiyA 308 1.50e+01 1wrvA 308 1.52e+01 1zatA 250 1.53e+01 b.160.1.1,d.335.1.1 124845,124846 1oqkA 97 1.54e+01 b.137.1.1 93419 2bklA 695 1.54e+01 2ch4A 320 1.55e+01 b.40.7.1,d.122.1.3 130447,130448 1xjo 284 1.58e+01 1xjo 1wdjA 187 1.58e+01 c.52.1.27 114536 1gvhA 396 1.59e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2culA 232 1.60e+01 c.3.1.7 130813 2f57A 317 1.60e+01 2yv5A 302 1.61e+01 1zbtA 371 1.61e+01 2nwqA 272 1.62e+01 1t3qB 788 1.62e+01 d.41.1.1,d.133.1.1 106369,106370 2vhjA 331 1.63e+01 1qciA 262 1.63e+01 1qi7A d.165.1.1 42201 2c9wA 169 1.64e+01 1b77A 228 1.65e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 2gu3A 136 1.65e+01 1w44A 331 1.66e+01 c.37.1.11 114147 2yvyA 278 1.67e+01 1so7A 382 1.68e+01 b.68.1.1 112106 2v0hA 456 1.71e+01 2nugA 221 1.72e+01 1j79A 347 1.74e+01 1j79A c.1.9.4 62675 1wy7A 207 1.74e+01 c.66.1.32 121433 1elqA 390 1.75e+01 1elqA c.67.1.3 34436 1ti6A 875 1.75e+01 b.52.2.2,c.81.1.1 106974,106975 1ifrA 121 1.76e+01 b.1.16.1 71203 1h6vA 499 1.76e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2ih2A 421 1.76e+01 2awfA 172 1.76e+01 d.20.1.1 127432 1idsA 207 1.76e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1j4aA 333 1.78e+01 c.2.1.4,c.23.12.1 71502,71503 1pz4A 116 1.78e+01 d.106.1.1 95400 2ip2A 334 1.80e+01 1txlA 215 1.80e+01 b.60.1.4 107429 1gx1A 160 1.82e+01 d.79.5.1 70675 2nacA 393 1.82e+01 2nadA c.2.1.4,c.23.12.1 30088,31348 1xkrA 206 1.83e+01 d.252.1.1 115421 1v8fA 276 1.83e+01 c.26.1.4 100503 2r78A 117 1.84e+01 2in5A 207 1.84e+01 1nsj 205 1.84e+01 1nsj 1nsjA 205 1.84e+01 c.1.2.4 28560 1x7dA 350 1.85e+01 c.2.1.13 114927 1feuA 206 1.87e+01 1feuA b.53.1.1 59801 1xjcA 169 1.87e+01 c.37.1.10 115387 1eyzA 392 1.88e+01 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1uc2A 481 1.89e+01 d.261.1.1 99161 2pi1A 334 1.89e+01 1txvB 440 1.89e+01 b.1.15.1,c.62.1.1,g.16.2.1 112784,112785,112786 1ayoA 130 1.90e+01 1ayoA b.2.4.1 22431 1cewI 108 1.93e+01 1cewI d.17.1.2 37999 1wdcC 156 1.94e+01 1wdcC a.39.1.5 17317 3d1cA 369 1.94e+01 2ibtA 421 1.95e+01 c.66.1.27,d.287.1.1 137205,137206 2gjgA 248 1.95e+01 2qp2A 511 1.95e+01 2hzcA 87 1.96e+01 2r1iA 172 1.99e+01 1nr0A 611 2.01e+01 b.69.4.1,b.69.4.1 86078,86079 2jfrA 234 2.01e+01 2ogfA 122 2.02e+01 1cqxA 403 2.03e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 3b34A 891 2.04e+01 1ubkL 534 2.04e+01 e.18.1.1 88422 2nybA 192 2.05e+01 a.2.11.1,d.44.1.1 138804,138805 2amyA 246 2.05e+01 c.108.1.10 127026 1u6bA 98 2.07e+01 d.58.7.1 107703 1yfsA 465 2.07e+01 a.203.1.1,d.104.1.1 123088,123089 1gpr 162 2.08e+01 1gpr 1gprA 162 2.08e+01 b.84.3.1 28267 1h2rL 534 2.10e+01 1h2rL e.18.1.1 43298 1t0bA 252 2.13e+01 c.23.16.6 106199 2igtA 332 2.14e+01 c.66.1.51 137401 2ipxA 233 2.14e+01 1erjA 393 2.15e+01 1erjA b.69.4.1 27660 2ijaA 295 2.15e+01 2gebA 185 2.17e+01 1v7rA 186 2.18e+01 c.51.4.1 100482 1r77A 103 2.19e+01 2esrA 177 2.20e+01 c.66.1.46 132344 1nh9A 87 2.20e+01 d.68.6.1 91878 2c4eA 302 2.21e+01 1qlpA 394 2.22e+01 1ovaA e.1.1.1 42628 1vm6A 228 2.23e+01 d.81.1.3,c.2.1.3 108877,118631 2v3aA 384 2.23e+01 2pimA 141 2.24e+01 1dv1A 449 2.25e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 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